Hi all, It looks like Date vectors, when used as columns in a DataFrame, are not printed correctly. The following example code demonstrates the problem: library(IRanges) x <- structure(c(16203, 16204, 16192, 16218, 16219, 16220, 16196, 16197, 16199, 16231, 16232, 16233, 16224, 16225, 16226, 16227 ), class = "Date") df <- data.frame(date=x) DF <- DataFrame(df) base::print.data.frame(df) print(DF) -Ryan > sessionInfo() R version 3.1.0 (2014-04-10) Platform: x86_64-unknown-linux-gnu (64-bit) locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 [7] LC_PAPER=en_US.UTF-8 LC_NAME=C [9] LC_ADDRESS=C LC_TELEPHONE=C [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] splines grDevices datasets parallel graphics utils stats [8] methods base other attached packages: [1] amap_0.8-12 GMD_0.3.1.1 [3] gplots_2.14.0 statmod_1.4.20 [5] DESeq2_1.4.5 RcppArmadillo_0.4.300.8.0 [7] Rcpp_0.11.2 cqn_1.10.0 [9] quantreg_5.05 SparseM_1.03 [11] preprocessCore_1.26.1 nor1mix_1.2-0 [13] mclust_4.3 baySeq_1.18.0 [15] DESeq_1.16.0 lattice_0.20-29 [17] locfit_1.5-9.1 edgeR_3.6.2 [19] limma_3.20.6 arrayQualityMetrics_3.20.0 [21] partitions_1.9-15 biomaRt_2.20.0 [23] functional_0.4 sqldf_0.4-7.1 [25] RSQLite.extfuns_0.0.1 RSQLite_0.11.4 [27] DBI_0.2-7 gsubfn_0.6-5 [29] proto_0.3-10 GenomicFeatures_1.16.2 [31] AnnotationDbi_1.26.0 chipseq_1.14.0 [33] inline_0.3.13 affy_1.42.3 [35] rtracklayer_1.24.2 Biobase_2.24.0 [37] ShortRead_1.22.0 GenomicAlignments_1.0.1 [39] BSgenome_1.32.0 BiocParallel_0.6.1 [41] Rsamtools_1.16.1 Biostrings_2.32.0 [43] XVector_0.4.0 doParallel_1.0.8 [45] iterators_1.0.7 Matrix_1.1-4 [47] GenomicRanges_1.16.3 GenomeInfoDb_1.0.2 [49] RColorBrewer_1.0-5 ESSR_1.0 [51] foreach_1.4.2 plyr_1.8.1 [53] stringr_0.6.2 IRanges_1.22.9 [55] BiocGenerics_0.10.0 ggplot2_1.0.0 [57] BiocInstaller_1.14.2 loaded via a namespace (and not attached): [1] affyio_1.32.0 affyPLM_1.40.1 annotate_1.42.0 [4] base64_1.2 BatchJobs_1.2 BBmisc_1.7 [7] beadarray_2.14.1 BeadDataPackR_1.16.0 bitops_1.0-6 [10] brew_1.0-6 Cairo_1.5-5 caTools_1.17 [13] checkmate_1.0 chron_2.3-45 cluster_1.15.2 [16] codetools_0.2-8 colorspace_1.2-4 compiler_3.1.0 [19] digest_0.6.4 fail_1.2 Formula_1.1-1 [22] gcrma_2.36.0 gdata_2.13.3 genefilter_1.46.1 [25] geneplotter_1.42.0 gmp_0.5-11 grid_3.1.0 [28] gridSVG_1.4-0 gtable_0.1.2 gtools_3.4.1 [31] Hmisc_3.14-4 hwriter_1.3 illuminaio_0.6.0 [34] KernSmooth_2.23-12 latticeExtra_0.6-26 MASS_7.3-33 [37] munsell_0.4.2 polynom_1.3-8 RCurl_1.96-0 [40] reshape2_1.4 RJSONIO_1.2-0.2 scales_0.2.4 [43] sendmailR_1.1-2 setRNG_2013.9-1 stats4_3.1.0 [46] survival_2.37-7 SVGAnnotation_0.93-1 tools_3.1.0 [49] vsn_3.32.0 XML_3.98-1.1 xtable_1.7-3 [52] zlibbioc_1.10.0 >

Thanks, fixed in devel. On Tue, Jun 24, 2014 at 12:26 PM, Ryan C. Thompson <rct@thompsonclan.org> wrote: > Hi all, > > It looks like Date vectors, when used as columns in a DataFrame, are not > printed correctly. The following example code demonstrates the problem: > > library(IRanges) > x <- structure(c(16203, 16204, 16192, 16218, 16219, 16220, 16196, > 16197, 16199, 16231, 16232, 16233, 16224, 16225, 16226, 16227 > ), class = "Date") > df <- data.frame(date=x) > DF <- DataFrame(df) > base::print.data.frame(df) > print(DF) > > -Ryan > > > sessionInfo() > R version 3.1.0 (2014-04-10) > Platform: x86_64-unknown-linux-gnu (64-bit) > > locale: > [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C > [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 > [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 > [7] LC_PAPER=en_US.UTF-8 LC_NAME=C > [9] LC_ADDRESS=C LC_TELEPHONE=C > [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C > > attached base packages: > [1] splines grDevices datasets parallel graphics utils stats > [8] methods base > > other attached packages: > [1] amap_0.8-12 GMD_0.3.1.1 > [3] gplots_2.14.0 statmod_1.4.20 > [5] DESeq2_1.4.5 RcppArmadillo_0.4.300.8.0 > [7] Rcpp_0.11.2 cqn_1.10.0 > [9] quantreg_5.05 SparseM_1.03 > [11] preprocessCore_1.26.1 nor1mix_1.2-0 > [13] mclust_4.3 baySeq_1.18.0 > [15] DESeq_1.16.0 lattice_0.20-29 > [17] locfit_1.5-9.1 edgeR_3.6.2 > [19] limma_3.20.6 arrayQualityMetrics_3.20.0 > [21] partitions_1.9-15 biomaRt_2.20.0 > [23] functional_0.4 sqldf_0.4-7.1 > [25] RSQLite.extfuns_0.0.1 RSQLite_0.11.4 > [27] DBI_0.2-7 gsubfn_0.6-5 > [29] proto_0.3-10 GenomicFeatures_1.16.2 > [31] AnnotationDbi_1.26.0 chipseq_1.14.0 > [33] inline_0.3.13 affy_1.42.3 > [35] rtracklayer_1.24.2 Biobase_2.24.0 > [37] ShortRead_1.22.0 GenomicAlignments_1.0.1 > [39] BSgenome_1.32.0 BiocParallel_0.6.1 > [41] Rsamtools_1.16.1 Biostrings_2.32.0 > [43] XVector_0.4.0 doParallel_1.0.8 > [45] iterators_1.0.7 Matrix_1.1-4 > [47] GenomicRanges_1.16.3 GenomeInfoDb_1.0.2 > [49] RColorBrewer_1.0-5 ESSR_1.0 > [51] foreach_1.4.2 plyr_1.8.1 > [53] stringr_0.6.2 IRanges_1.22.9 > [55] BiocGenerics_0.10.0 ggplot2_1.0.0 > [57] BiocInstaller_1.14.2 > > loaded via a namespace (and not attached): > [1] affyio_1.32.0 affyPLM_1.40.1 annotate_1.42.0 > [4] base64_1.2 BatchJobs_1.2 BBmisc_1.7 > [7] beadarray_2.14.1 BeadDataPackR_1.16.0 bitops_1.0-6 > [10] brew_1.0-6 Cairo_1.5-5 caTools_1.17 > [13] checkmate_1.0 chron_2.3-45 cluster_1.15.2 > [16] codetools_0.2-8 colorspace_1.2-4 compiler_3.1.0 > [19] digest_0.6.4 fail_1.2 Formula_1.1-1 > [22] gcrma_2.36.0 gdata_2.13.3 genefilter_1.46.1 > [25] geneplotter_1.42.0 gmp_0.5-11 grid_3.1.0 > [28] gridSVG_1.4-0 gtable_0.1.2 gtools_3.4.1 > [31] Hmisc_3.14-4 hwriter_1.3 illuminaio_0.6.0 > [34] KernSmooth_2.23-12 latticeExtra_0.6-26 MASS_7.3-33 > [37] munsell_0.4.2 polynom_1.3-8 RCurl_1.96-0 > [40] reshape2_1.4 RJSONIO_1.2-0.2 scales_0.2.4 > [43] sendmailR_1.1-2 setRNG_2013.9-1 stats4_3.1.0 > [46] survival_2.37-7 SVGAnnotation_0.93-1 tools_3.1.0 > [49] vsn_3.32.0 XML_3.98-1.1 xtable_1.7-3 > [52] zlibbioc_1.10.0 > > > > _______________________________________________ > Bioconductor mailing list > Bioconductor@r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane. > science.biology.informatics.conductor > [[alternative HTML version deleted]]